Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004691.1 Corchorus capsularis cultivar CVL-1 contig04707, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 661

Length: 1103
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31


Found at i:50 original size:18 final size:18

Alignment explanation


    Indices: 27--83  Score: 114
    Period size: 18  Copynumber: 3.2  Consensus size: 18

         17 TGGAATCGAC

                              
         27 AAATTATTCATTAACAGA
          1 AAATTATTCATTAACAGA

                              
         45 AAATTATTCATTAACAGA
          1 AAATTATTCATTAACAGA

                              
         63 AAATTATTCATTAACAGA
          1 AAATTATTCATTAACAGA

               
         81 AAA
          1 AAA

         84 ACAAATAAAA


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   39  1.00

ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32


Consensus pattern (18 bp):   
AAATTATTCATTAACAGA

Found at i:786 original size:57 final size:57

Alignment explanation


    Indices: 717--827  Score: 197
    Period size: 57  Copynumber: 1.9  Consensus size: 57

        707 GGATGAAGAA

                                                  *                  
        717 GATGAAGAAATGGAAAAACTGGTTAAGGGGTCATTATCGATATGATTTATCTCATGG
          1 GATGAAGAAATGGAAAAACTGGTTAAGGGGTCATTATCAATATGATTTATCTCATGG

                                                                   
        774 GATGAATG-AATGGAAAAACTGGTTAAGGGGTCATTATCAATATGATTTATCTCA
          1 GATGAA-GAAATGGAAAAACTGGTTAAGGGGTCATTATCAATATGATTTATCTCA

        828 GAGTAGATGG


Statistics
Matches: 52,  Mismatches: 1, Indels: 2
        0.95            0.02        0.04

Matches are distributed among these distances:
  57   51  0.98
  58    1  0.02

ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31


Consensus pattern (57 bp):   
GATGAAGAAATGGAAAAACTGGTTAAGGGGTCATTATCAATATGATTTATCTCATGG
Done.